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AgeCommit message (Expand)Author
2019-05-15edit example to support passing bionix as argumentJustin Bedo
2019-05-14strip: remove store paths from outputs to minimise closuresJustin Bedo
2019-05-09strelka: rewrite to use multiple outputsJustin Bedo
2019-05-09test: enable minimap and snap testsJustin Bedo
2019-05-09fastp: rename run to check for consistency with fastqcJustin Bedo
2019-05-02shard-regex: split into separate file to fix exec issuesJustin Bedo
2019-05-02shard: missing fileJustin Bedo
2019-05-02shard: Implement some basic sharding for FQ filesJustin Bedo
2019-05-02samtools-merge: detect correct sortingJustin Bedo
2019-05-01Add fastp.l-d-s
2019-04-30Add examples and example READMEJustin Bedo
2019-04-30fix example data urls and hashesJustin Bedo
2019-04-30cleanup examples and stray filesJustin Bedo
2019-04-18sbatch: initial slurm implementationJustin Bedo
2019-04-17snap: initJustin Bedo
2019-04-12minimap2: typoJustin Bedo
2019-04-12minimap2: initJustin Bedo
2019-04-08grids: add function to include assemblies with annotated VCFJustin Bedo
2019-04-08bowtie: sort the output to ensure determinismJustin Bedo
2019-04-07modify outputs to ensure determinismJustin Bedo
2019-04-07Update example data and expand testsJustin Bedo
2019-04-07update stage names to include bionix- prefixJustin Bedo
2019-03-28gridss: less chatty logsJustin Bedo
2019-03-28gridss: 2.0.0 → 2.2.2Justin Bedo
2019-03-22cnvkit: add scatter plotsJustin Bedo
2019-03-22cnvkit: copy less filesJustin Bedo
2019-03-15add multicore passthru flagJustin Bedo
2019-03-13mosdepth: fix broken pkg link for mosdepth sourceJustin Bedo
2019-03-06api docs: init GRIDSSJustin Bedo
2019-03-06api doc: init fastqcJustin Bedo
2019-03-06api docs: init facetsJustin Bedo
2019-03-06api docs: init CNVkitJustin Bedo
2019-03-06api docs: init ascatNGSJustin Bedo
2019-03-06api docs: fix bwa type annotationsJustin Bedo
2019-03-06api docs: init bowtieJustin Bedo
2019-03-06draft API docs for BWA and strelkaJustin Bedo
2019-03-04qsub: fix bugJustin Bedo
2019-03-01ascat: initJustin Bedo
2019-03-01qsub: fix temporary directory cleanupJustin Bedo
2019-02-15ref: missing pkg scope on gawkJustin Bedo
2019-02-11snpeff: parameterise heap size and default to 31gJustin Bedo
2019-02-06qsub: rename flags to qsubFlags to avoid collisionJustin Bedo
2019-02-06ref-grch38-snpeff-db: fix pkg scopeJustin Bedo
2019-02-06qsub: parameterise queue and allow arbitrary flags to be passedJustin Bedo
2019-01-23stage: change to stdenvNoCCJustin Bedo
2019-01-17strelka-callSomatic: remove superfluous gzip dependencyJustin Bedo
2019-01-17compression: refactor compression frameworkJustin Bedo
2019-01-17strelka: refactor vcf extractionJustin Bedo
2019-01-16strelka: split out vcfsJustin Bedo
2019-01-15strelka: add germline callingJustin Bedo
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